Locus 7426

Sequence ID 3L_DroMel_CAF1
Location 19,980,292 – 19,980,409
Length 117
Max. P 0.743756
window12066 window12067

overview

Window 6

Location 19,980,292 – 19,980,409
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.00
Mean single sequence MFE -28.64
Consensus MFE -12.16
Energy contribution -13.28
Covariance contribution 1.12
Combinations/Pair 1.10
Mean z-score -1.88
Structure conservation index 0.42
SVM decision value 0.14
SVM RNA-class probability 0.601571
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19980292 117 + 23771897
ACUUUAUGUUUUGAGUUGCUCAAUAUUUCAGUACACUU-UUUAUGUUGCGCAUUCAAAAAGAUGCAGGUGCCUGCAGAAUU-UUGAUGGCAACUGACUGCAUUCAGGUUUGAGCACUUU-
............((((.((((((...............-.....(((((.(((.(((((...(((((....)))))...))-)))))))))))...(((....)))..)))))))))).- ( -31.80)
>DroSec_CAF1 70586 118 + 1
ACAUUAUGUCUUGAGUUGCUCAAUAUUUCAGUACUCAUAUAUUUGCUGCACAUUCAAAAAGAUGUAGGUGCCUGCAGAAUU-UUGAUGGCAACUGACUGCAUUCCGGUUUGAGCACUUU-
............((((.((((((....(((((...((......)).(((.(((.(((((...(((((....)))))...))-))))))))))))))(((.....))).)))))))))).- ( -27.90)
>DroSim_CAF1 29238 115 + 1
ACUUUAUGUCUUGAGUUGCUCAAUAUUUCAGUACUCAUAUUUUUGCUGCACAUUCAAAAAGGUGUAGGUGCCUGUAGAAUU-UUGAU---AACUGACUGCAUUCCAGUUUGAGCACUUU-
............((((.((((((....(((((..(((...((((((.((((...((......))...))))..))))))..-.))).---.)))))(((.....))).)))))))))).- ( -28.60)
>DroEre_CAF1 21134 119 + 1
ACCUUAUCCCUGCAGUUGCUCAAUAUUUGAAUACCUUAUUUUGUGUUGCACGUGCAAGAGGAUGUAGGUGCCUGCAGAAUU-UUGAUUGCAACUGACUGCAUUCAGAAUUAAGCACUUUU
((((((((((((((..(((..(((((..(((((...))))).))))))))..))).)).))))).))))...(((..((((-((((.((((......)))).))))))))..)))..... ( -34.10)
>DroYak_CAF1 22040 97 + 1
-CUUCAUGUCUGGAGUUGCUCAAUAUUUAAAUAUAU---------------------AAGGUGGUAGGUGCCUGAAGAAUUUUUGAUUGCAGCUGACUGCAUUCACAUUUAAGCACUUU-
-(((((....)))))(..((..((((......))))---------------------..))..).((((((.((((.......(((.(((((....))))).)))..)))).)))))).- ( -20.80)
>consensus
ACUUUAUGUCUUGAGUUGCUCAAUAUUUCAGUACACAU_UUUUUGCUGCACAUUCAAAAAGAUGUAGGUGCCUGCAGAAUU_UUGAUGGCAACUGACUGCAUUCAGGUUUGAGCACUUU_
............((((.((((((.......................................(((((....)))))........((..(((......)))..))....)))))))))).. (-12.16 = -13.28 +   1.12)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,980,292 – 19,980,409
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.00
Mean single sequence MFE -25.06
Consensus MFE -10.96
Energy contribution -12.92
Covariance contribution 1.96
Combinations/Pair 1.04
Mean z-score -1.98
Structure conservation index 0.44
SVM decision value 0.46
SVM RNA-class probability 0.743756
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19980292 117 - 23771897
-AAAGUGCUCAAACCUGAAUGCAGUCAGUUGCCAUCAA-AAUUCUGCAGGCACCUGCAUCUUUUUGAAUGCGCAACAUAAA-AAGUGUACUGAAAUAUUGAGCAACUCAAAACAUAAAGU
-....(((((((..(((....)))((((((((((((((-((...(((((....)))))...))))).))).)))((((...-..)))))))))....)))))))................ ( -32.30)
>DroSec_CAF1 70586 118 - 1
-AAAGUGCUCAAACCGGAAUGCAGUCAGUUGCCAUCAA-AAUUCUGCAGGCACCUACAUCUUUUUGAAUGUGCAGCAAAUAUAUGAGUACUGAAAUAUUGAGCAACUCAAGACAUAAUGU
-..((((((((.....((......)).(((((((((((-((...((.((....)).))...))))).))).))))).......))))))))......(((((...))))).......... ( -26.60)
>DroSim_CAF1 29238 115 - 1
-AAAGUGCUCAAACUGGAAUGCAGUCAGUU---AUCAA-AAUUCUACAGGCACCUACACCUUUUUGAAUGUGCAGCAAAAAUAUGAGUACUGAAAUAUUGAGCAACUCAAGACAUAAAGU
-..((((((((((((((.......))))))---.....-..........((((...((......))...))))..........))))))))......(((((...))))).......... ( -21.30)
>DroEre_CAF1 21134 119 - 1
AAAAGUGCUUAAUUCUGAAUGCAGUCAGUUGCAAUCAA-AAUUCUGCAGGCACCUACAUCCUCUUGCACGUGCAACACAAAAUAAGGUAUUCAAAUAUUGAGCAACUGCAGGGAUAAGGU
.....(((..((((.(((.(((((....))))).))).-))))..)))...((((..(((((..((((..(((...((........))..(((.....))))))..))))))))).)))) ( -27.30)
>DroYak_CAF1 22040 97 - 1
-AAAGUGCUUAAAUGUGAAUGCAGUCAGCUGCAAUCAAAAAUUCUUCAGGCACCUACCACCUU---------------------AUAUAUUUAAAUAUUGAGCAACUCCAGACAUGAAG-
-....(((((((...(((.(((((....))))).)))...........((......)).....---------------------.............)))))))...............- ( -17.80)
>consensus
_AAAGUGCUCAAACCUGAAUGCAGUCAGUUGCAAUCAA_AAUUCUGCAGGCACCUACAUCUUUUUGAAUGUGCAACAAAAA_AAGAGUACUGAAAUAUUGAGCAACUCAAGACAUAAAGU
...(((((((((.......(((((....(((....))).....))))).((((...((......))...))))........................)))))).)))............. (-10.96 = -12.92 +   1.96)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:47 2006